How to set up the parseing rule for custom protein database?
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GS
Jan 31, 2008, 7:47:50 PM1/31/08
to PEAKS_forum
Dear all:
I have a custom protein database, format like this:
>Unknown Protein 123 (A000109a) Possible binding site A.
MGDVEKGKKIFVQKCAQCHTVEKGGKHKTGPNLHGLFGRKTGQAAGFSYTDANKNKGITW
GEDTLMEYLENPKKYIPGTKMIFAGIKKKGERADLIAYLKKATNE
A000109a is the accession number, I can use the whole line as
description. How to set the parse rule in database configuration?
Thank you!
Sheng
I have a custom protein database, format like this:
>Unknown Protein 123 (A000109a) Possible binding site A.
MGDVEKGKKIFVQKCAQCHTVEKGGKHKTGPNLHGLFGRKTGQAAGFSYTDANKNKGITW
GEDTLMEYLENPKKYIPGTKMIFAGIKKKGERADLIAYLKKATNE
A000109a is the accession number, I can use the whole line as
description. How to set the parse rule in database configuration?
Thank you!
Sheng
BrianM
Feb 19, 2008, 1:41:42 PM2/19/08
to PEAKS_forum
In the Fasta Database Configuration window, in the advanced options
part set:
Rule to parse accession/id string from FASTA title:
[(]\(.*\)[)]
Rule to parse description string from FASTA title:
[)]\(.*\)
*Users be careful not to have any blank spaces in your sequences, such
as "MG_DVK".
part set:
Rule to parse accession/id string from FASTA title:
[(]\(.*\)[)]
Rule to parse description string from FASTA title:
[)]\(.*\)
*Users be careful not to have any blank spaces in your sequences, such
as "MG_DVK".
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